Dear list,
Is there somewhere in the Galaxy any running example of a planemo test
embracing a from_data_table option ?
We are trying to reproduce the picard example referenced here:
https://github.com/jmchilton/picard/commit/4df8974384081ee1bb0f97e1bb8d7f935ba09d73#diff-4145b3df5cbab370b2450e3
I would be glad to help.
Thank a lot
Fred
*De :*galaxy-dev
[mailto:galaxy-dev-boun...@lists.galaxyproject.org
<mailto:galaxy-dev-boun...@lists.galaxyproject.org>] *De la part
de* Peter Cock
*Envoyé :* mardi 12 septembre 2017 14:56
*À :* Laure QUINTRIC mailto:laure.quint.
Hi Peter,
Thank you for your answer. Maybe I should try your option below :
Le 12/09/2017 à 14:56, Peter Cock a écrit :
I can't find the email thread, but I recall someone previously trying
to do something with a single large example.loc file for all users
but with an extra column for filterin
Hello Galaxy users,
I try to figure out how I can display a select list into a galaxy tool
according to the connected user.
I have several .loc files containing the paths for custom blast
databases I have created for several users (user1.loc, user2.loc, and so
on). I would like the blast too
Hi there,
I am currently using Galaxy with the deprecated DRMAAV1 to submit jobs
on pbs pro cluster.
Altair just released an implementation of DRMAAV2 for PBS pro (see doc
below). Do you think it is compatible with Galaxy ? Has anyone tried ?
https://pbspro.atlassian.net/wiki/display/PD/DRM
Hi Gildas,
Have a look here :
https://github.com/martenson/dagobah-training/tree/master/advanced/002a-systemd-supervisor
See ya.
Laure
Le 14/11/2016 à 21:35, Gildas Le Corguillé a écrit :
Hi,
Since Galaxy need to be restarted sometime (load datatype, add
ressources in .loc, apply changes
Hi Galaxy users,
As somebody try to run dynamic runner with the option
embed_metadata_in_job set to False ?
I notice that it works with drmaa runner but not with dynamic.
Here is my job_conf.xmf :
python
my_conf
False
Hi galaxy users,
while using galaxy with drmaa and real user on drm system, I would like
to know if there's a way to set the variable PBS_O_LOGNAME to the real
user name in the job_conf.xml :
-v PBS_O_LOGNAME=[REAL_USER_NAME??] -q
test -l mem=100gb
Thank you,
Laure
_
Hi there (sorry for all theses questions),
when I execute a job with remote user drmaa configuration on our pbs
cluster, I see in the job working directory the script the galaxy_XXX.sh
which set the galaxy virtual env and execute set_metadata.py after
tool_script.sh completion but I get this i
Hi there,
I read this thread :
http://dev.list.galaxyproject.org/external-chown-script-py-and-the-local-job-runner-tc4668738.html
(sorry not to answer in this thread but I'm new to the list).
I'm using galaxy 16.04 (and the corrected files should be included as it
is merge in 16.04: https://gi
out what's going on and
let you know when I have a fix.
-Dannon
On Tue, Apr 19, 2016 at 3:07 AM, Laure QUINTRIC
mailto:laure.quint...@ifremer.fr>> wrote:
Hi galaxy users,
I just installed version 16.04 of galaxy. I can connect to
galax
Hi galaxy users,
I just installed version 16.04 of galaxy. I can connect to galaxy with
remote user through CAS authentification but my session is invalidated,
I get this message in the history :
An error occurred while getting updates from the server. Please contact
a Galaxy administrator if
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